void RbSettings::writeUserSettings( void )
{
std::string user_dir = RevBayesCore::RbFileManager::expandUserDir("~");
// open the ini file
std::string settings_file_name = ".RevBayes.ini";
RevBayesCore::RbFileManager fm = RevBayesCore::RbFileManager(user_dir, settings_file_name);
std::ofstream writeStream;
fm.openFile( writeStream );
writeStream << "moduledir=" << moduleDir << std::endl;
writeStream << "printNodeIndex=" << (printNodeIndex ? "TRUE" : "FALSE") << std::endl;
writeStream << "tolerance=" << tolerance << std::endl;
writeStream << "linewidth=" << lineWidth << std::endl;
writeStream << "useScaling=" << useScaling << std::endl;
writeStream << "scalingDensity=" << scalingDensity << std::endl;
writeStream << "collapseSampledAncestors=" << (collapseSampledAncestors ? "TRUE" : "FALSE") << std::endl;
fm.closeFile( writeStream );
}
Module::Module(const std::string &fn)
{
// first we need to load the file
std::ifstream readStream;
RevBayesCore::RbFileManager fm = RevBayesCore::RbFileManager(fn);
fm.openFile( readStream );
/* File-processing loop */
while ( readStream.good() )
{
// Read a line
std::string line;
getline( readStream, line );
commandLines.push_back( line );
}
}
void RbSettings::initializeUserSettings(void)
{
moduleDir = "modules"; // the default module directory
useScaling = false; // the default useScaling
scalingDensity = 4; // the default scaling density
lineWidth = 160; // the default line width
tolerance = 10E-10; // set default value for tolerance comparing doubles
printNodeIndex = true; // print node indices of tree nodes as comments
collapseSampledAncestors = true;
std::string user_dir = RevBayesCore::RbFileManager::expandUserDir("~");
// read the ini file, override defaults if applicable
std::string settings_file_name = ".RevBayes.ini";
RevBayesCore::RbFileManager fm = RevBayesCore::RbFileManager(user_dir, settings_file_name);
// bool failed = false; //unused
if ( fm.isFile() )
{
std::ifstream readStream;
fm.openFile( readStream );
std::string readLine = "";
while ( std::getline(readStream,readLine) )
{
std::vector<std::string> tokens = std::vector<std::string>();
StringUtilities::stringSplit(readLine, "=", tokens);
if (tokens.size() > 1)
{
setOption(tokens[0], tokens[1], false);
}
}
fm.closeFile(readStream);
}
// initialize the current directory to be the directory the binary is sitting in
# ifdef RB_WIN
char buffer[MAX_DIR_PATH];
GetModuleFileName( NULL, buffer, MAX_DIR_PATH );
std::string::size_type pos = std::string( buffer ).find_last_of( "\\/" );
workingDirectory = std::string( buffer ).substr( 0, pos);
# else
char cwd[MAX_DIR_PATH+1];
if ( getcwd(cwd, MAX_DIR_PATH+1) )
{
std::string pathSeparator = "/";
std::string curdir = cwd;
if ( curdir.at( curdir.length()-1 ) == pathSeparator[0] )
{
curdir.erase( curdir.length()-1 );
}
workingDirectory = curdir;
}
else
{
workingDirectory = "";
}
# endif
// save the current settings for the future.
// writeUserSettings();
}